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Aliases for VCY Gene

Aliases for VCY Gene

  • Variable Charge, Y-Linked 2 3
  • Variable Charge, Y Chromosome 2 3
  • Variably Charged Protein Y 3 4
  • Basic Charge, Y-Linked 1 3 4
  • VCY1A 3 4
  • BPY1 3 4
  • Testis-Specific Basic Protein On Y, 1 3
  • Basic Protein On Y Chromosome, 1 3
  • VCY VCY1B 4
  • BPY1B 4
  • VCY1 3

External Ids for VCY Gene

Previous GeneCards Identifiers for VCY Gene

  • GC0YP015485
  • GC0YM015407
  • GC0YM015106
  • GC0YP014607
  • GC0YP014678
  • GC0YP016169
  • GC0YM010741
  • GC0YM016098

Summaries for VCY Gene

Entrez Gene Summary for VCY Gene

  • The protein encoded by this gene is a member of a family of human VCX/Y genes. This gene family has multiple members on both X and Y chromosomes, and all are expressed exclusively in male germ cells. Members of the VCX/Y family share a high degree of sequence identity, with the exception that a 30-bp unit is tandemly repeated in X-linked members but occurs only once in Y-linked members. VCX/Y genes encode small and highly charged proteins of unknown function. This gene encodes a small, positively charged protein. The presence of a putative bipartite nuclear localization signal suggests that this gene encodes a nuclear protein. The genome has two identical copies of this gene within a palindromic region; this record represents the more centromeric copy. [provided by RefSeq, Jul 2008]

GeneCards Summary for VCY Gene

VCY (Variable Charge, Y-Linked) is a Protein Coding gene. Diseases associated with VCY include y chromosome infertility. An important paralog of this gene is VCY1B.

UniProtKB/Swiss-Prot for VCY Gene

  • May mediate a process in spermatogenesis or may play a role in sex ratio distortion

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VCY Gene

Genomics for VCY Gene

Regulatory Elements for VCY Gene

Genomic Location for VCY Gene

13,985,772 bp from pter
13,986,513 bp from pter
742 bases
Minus strand

Genomic View for VCY Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for VCY Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VCY Gene

Proteins for VCY Gene

  • Protein details for VCY Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Testis-specific basic protein Y 1
    Protein Accession:

    Protein attributes for VCY Gene

    125 amino acids
    Molecular mass:
    12917 Da
    Quaternary structure:
    No Data Available

neXtProt entry for VCY Gene

Proteomics data for VCY Gene at MOPED

Post-translational modifications for VCY Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VCY Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for VCY Gene

Domains & Families for VCY Gene

Gene Families for VCY Gene

Protein Domains for VCY Gene


Suggested Antigen Peptide Sequences for VCY Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the VCX/VCY family.
  • Belongs to the VCX/VCY family.
genes like me logo Genes that share domains with VCY: view

Function for VCY Gene

Molecular function for VCY Gene

GENATLAS Biochemistry:
variable charge X/Y,basic protein on chromosome Y,1,testis specific,in a AZF deleted region
UniProtKB/Swiss-Prot Function:
May mediate a process in spermatogenesis or may play a role in sex ratio distortion

Phenotypes for VCY Gene

GenomeRNAi human phenotypes for VCY:
genes like me logo Genes that share phenotypes with VCY: view

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VCY

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for VCY Gene

Localization for VCY Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for VCY Gene

Pathways & Interactions for VCY Gene

SuperPathways for VCY Gene

No Data Available

Interacting Proteins for VCY Gene

Gene Ontology (GO) - Biological Process for VCY Gene


No data available for Pathways by source and SIGNOR curated interactions for VCY Gene

Drugs & Compounds for VCY Gene

No Compound Related Data Available

Transcripts for VCY Gene

mRNA/cDNA for VCY Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(43) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for VCY Gene

Variable charge, Y-linked:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VCY

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for VCY Gene

No ASD Table

Relevant External Links for VCY Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for VCY Gene

mRNA expression in normal human tissues for VCY Gene

Protein differential expression in normal tissues from HIPED for VCY Gene

This gene is overexpressed in Ovary (38.6) and Testis (30.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for VCY Gene

SOURCE GeneReport for Unigene cluster for VCY Gene Hs.632284

mRNA Expression by UniProt/SwissProt for VCY Gene

Tissue specificity: Expressed exclusively in testis
genes like me logo Genes that share expression patterns with VCY: view

Protein tissue co-expression partners for VCY Gene

- Elite partner

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for VCY Gene

Orthologs for VCY Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for VCY Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LOC742075 35
  • 95.69 (n)
  • 88.79 (a)
Species with no ortholog for VCY:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for VCY Gene

Gene Tree for VCY (if available)
Gene Tree for VCY (if available)

Paralogs for VCY Gene

Paralogs for VCY Gene

(5) SIMAP similar genes for VCY Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with VCY: view

Variants for VCY Gene

Sequence variations from dbSNP and Humsavar for VCY Gene

SNP ID Clin Chr 0Y pos Sequence Context AA Info Type MAF
rs111715503 -- 13,985,622(+) CCTCC(C/T)CACAC downstream-variant-500B
rs112070685 -- 13,985,519(+) CCTCT(G/T)CCTCC downstream-variant-500B
rs113518653 -- 13,988,144(+) AGGTA(A/G)CTCTA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for VCY Gene

Variant ID Type Subtype PubMed ID
nsv469834 CNV Gain 16826518

Relevant External Links for VCY Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for VCY Gene

Disorders for VCY Gene

MalaCards: The human disease database

(1) MalaCards diseases for VCY Gene - From: GeneCards

Disorder Aliases PubMed IDs
y chromosome infertility
  • oligozoospermia
- elite association
Search VCY in MalaCards View complete list of genes associated with diseases

Relevant External Links for VCY

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with VCY: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VCY Gene

Publications for VCY Gene

  1. Functional coherence of the human Y chromosome. (PMID: 9381176) Lahn B.T. … Page D.C. (Science 1997) 2 67
  2. A search for novel cancer/testis antigens in lung cancer identifies VCX/Y genes, expanding the repertoire of potential immunotherapeutic targets. (PMID: 24970476) Taguchi A. … Hanash S.M. (Cancer Res. 2014) 67
  3. A shared promoter region suggests a common ancestor for the human VCX/Y, SPANX, and CSAG gene families and the murine CYPT family. (PMID: 17342728) Hansen M.A. … Leffers H. (Mol. Reprod. Dev. 2008) 67
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 67
  5. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PMID: 12815422) Skaletsky H. … Page D.C. (Nature 2003) 67

Products for VCY Gene

Sources for VCY Gene

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